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Figure 4 | BMC Bioinformatics

Figure 4

From: OmniMapFree: A unified tool to visualise and explore sequenced genomes

Figure 4

Screenshot of OmniMap analysis on the presence of transposable elements within open reading frames on chromosome 1 of the Mycosphaerella graminicola genome. The specific map developed for this organism is called MgraMap and was created using the whole genome downloads available from the JGI (Version 2). (a) Top bar shows the position of all predicted genes (in red vertical bars). Middle bar shows the position of one transposable element which is identified many times throughout the entire genome sequence (in blue vertical bars). Bottom bar highlights the position of 1 ORF (Gene model Id = e_gw1.1.932.1) which has been disrupted through the integration of the transposon (shown in close-up below with the position of analytical PCR primers). (b) Follow up PCR on genomic DNA from seven M. graminicola isolates. This analysis confirmed that the open reading frame (ORF) interrupted by transposon insertion in isolate IPO323 was intact (insertion free) in the other six isolates tested. This represents an example where OmniMap can be used to highlight genomic regions which could be the source of genetic variation between individuals of a species.

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